Multiple sequence alignment - TraesCS7D01G510200

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7D01G510200 chr7D 100.000 3908 0 0 1 3908 613393435 613397342 0.000000e+00 7217.0
1 TraesCS7D01G510200 chr7D 89.232 1003 90 10 1148 2136 613406395 613407393 0.000000e+00 1238.0
2 TraesCS7D01G510200 chr7D 77.215 711 100 40 327 990 613405532 613406227 3.710000e-95 359.0
3 TraesCS7D01G510200 chr7D 87.432 183 13 6 2688 2862 613407390 613407570 6.620000e-48 202.0
4 TraesCS7D01G510200 chr7A 97.555 3436 62 8 477 3908 704776161 704779578 0.000000e+00 5860.0
5 TraesCS7D01G510200 chr7A 88.922 1002 95 8 1148 2136 704792334 704793332 0.000000e+00 1221.0
6 TraesCS7D01G510200 chr7A 91.195 318 21 3 162 475 704691395 704691709 3.610000e-115 425.0
7 TraesCS7D01G510200 chr7A 79.723 577 85 25 327 884 704791470 704792033 4.740000e-104 388.0
8 TraesCS7D01G510200 chr7A 86.885 183 13 7 2688 2862 704793329 704793508 1.110000e-45 195.0
9 TraesCS7D01G510200 chr7A 93.939 66 3 1 94 158 727776038 727776103 8.940000e-17 99.0
10 TraesCS7D01G510200 chr7B 95.593 2882 114 7 870 3744 703165574 703168449 0.000000e+00 4606.0
11 TraesCS7D01G510200 chr7B 88.723 1002 97 8 1148 2136 703246167 703247165 0.000000e+00 1210.0
12 TraesCS7D01G510200 chr7B 89.628 646 40 12 160 794 703164927 703165556 0.000000e+00 797.0
13 TraesCS7D01G510200 chr7B 77.946 594 83 33 327 884 703245285 703245866 1.050000e-85 327.0
14 TraesCS7D01G510200 chr3A 85.714 77 11 0 3832 3908 22684189 22684113 9.000000e-12 82.4
15 TraesCS7D01G510200 chr1D 85.526 76 11 0 3833 3908 492503836 492503761 3.240000e-11 80.5
16 TraesCS7D01G510200 chr1A 85.526 76 11 0 3833 3908 590835684 590835609 3.240000e-11 80.5
17 TraesCS7D01G510200 chr6D 87.879 66 8 0 94 159 454746123 454746188 1.160000e-10 78.7
18 TraesCS7D01G510200 chr2B 91.837 49 4 0 90 138 787977642 787977594 7.010000e-08 69.4


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G510200 chr7D 613393435 613397342 3907 False 7217.000000 7217 100.000000 1 3908 1 chr7D.!!$F1 3907
1 TraesCS7D01G510200 chr7D 613405532 613407570 2038 False 599.666667 1238 84.626333 327 2862 3 chr7D.!!$F2 2535
2 TraesCS7D01G510200 chr7A 704776161 704779578 3417 False 5860.000000 5860 97.555000 477 3908 1 chr7A.!!$F2 3431
3 TraesCS7D01G510200 chr7A 704791470 704793508 2038 False 601.333333 1221 85.176667 327 2862 3 chr7A.!!$F4 2535
4 TraesCS7D01G510200 chr7B 703164927 703168449 3522 False 2701.500000 4606 92.610500 160 3744 2 chr7B.!!$F1 3584
5 TraesCS7D01G510200 chr7B 703245285 703247165 1880 False 768.500000 1210 83.334500 327 2136 2 chr7B.!!$F2 1809

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
113 114 0.105246 ATTGAAACAACCCTGGGGCA 60.105 50.000 18.88 2.27 39.32 5.36 F
119 120 0.116940 ACAACCCTGGGGCAAATCAT 59.883 50.000 18.88 0.00 39.32 2.45 F
203 204 0.318441 TGTCAAGCTAGCGCACTCTT 59.682 50.000 11.47 6.18 39.10 2.85 F
609 648 0.535780 CCCAGAGCAAAGCAGTCACA 60.536 55.000 0.00 0.00 0.00 3.58 F
1249 1381 2.124109 TCCAGTGCCCGTTTTGCA 60.124 55.556 0.00 0.00 36.12 4.08 F
2564 2708 2.348243 CAAACCTCCCGCGGGTTA 59.652 61.111 41.57 24.58 45.15 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1707 1851 1.610038 TGTGCTTTGTGATCAGCAAGG 59.390 47.619 8.76 10.99 39.10 3.61 R
2276 2420 5.248870 AGGTTGATTTTAGCTATTTGGCG 57.751 39.130 0.00 0.00 37.29 5.69 R
2391 2535 2.044946 GCTGTTTGGCGGGAGGAT 60.045 61.111 0.00 0.00 0.00 3.24 R
2564 2708 0.251341 AATCCCGCAAACCAGAAGCT 60.251 50.000 0.00 0.00 0.00 3.74 R
2620 2764 2.513753 ACGCATCTGGACCATTTTTGA 58.486 42.857 0.00 0.00 0.00 2.69 R
3728 3883 1.364328 AGACTGTGGGAAGGAGGAGAT 59.636 52.381 0.00 0.00 0.00 2.75 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 2.887151 CCATCTCAACTGGGGAGTTT 57.113 50.000 0.00 0.00 34.04 2.66
20 21 3.160679 CCATCTCAACTGGGGAGTTTT 57.839 47.619 0.00 0.00 34.04 2.43
21 22 3.084786 CCATCTCAACTGGGGAGTTTTC 58.915 50.000 0.00 0.00 34.04 2.29
22 23 3.245052 CCATCTCAACTGGGGAGTTTTCT 60.245 47.826 0.00 0.00 34.04 2.52
23 24 4.401925 CATCTCAACTGGGGAGTTTTCTT 58.598 43.478 0.00 0.00 34.04 2.52
24 25 4.086706 TCTCAACTGGGGAGTTTTCTTC 57.913 45.455 0.00 0.00 34.04 2.87
25 26 3.149981 CTCAACTGGGGAGTTTTCTTCC 58.850 50.000 0.00 0.00 44.82 3.46
26 27 1.880027 CAACTGGGGAGTTTTCTTCCG 59.120 52.381 0.00 0.00 46.49 4.30
27 28 1.430992 ACTGGGGAGTTTTCTTCCGA 58.569 50.000 0.00 0.00 46.49 4.55
28 29 1.772453 ACTGGGGAGTTTTCTTCCGAA 59.228 47.619 0.00 0.00 46.49 4.30
29 30 2.375509 ACTGGGGAGTTTTCTTCCGAAT 59.624 45.455 0.00 0.00 46.49 3.34
30 31 3.181433 ACTGGGGAGTTTTCTTCCGAATT 60.181 43.478 0.00 0.00 46.49 2.17
31 32 3.826729 CTGGGGAGTTTTCTTCCGAATTT 59.173 43.478 0.00 0.00 46.49 1.82
32 33 3.572255 TGGGGAGTTTTCTTCCGAATTTG 59.428 43.478 0.00 0.00 46.49 2.32
33 34 3.824443 GGGGAGTTTTCTTCCGAATTTGA 59.176 43.478 0.00 0.00 46.49 2.69
34 35 4.082733 GGGGAGTTTTCTTCCGAATTTGAG 60.083 45.833 0.00 0.00 46.49 3.02
35 36 4.519350 GGGAGTTTTCTTCCGAATTTGAGT 59.481 41.667 0.00 0.00 35.63 3.41
36 37 5.334957 GGGAGTTTTCTTCCGAATTTGAGTC 60.335 44.000 0.00 0.00 35.63 3.36
37 38 5.470437 GGAGTTTTCTTCCGAATTTGAGTCT 59.530 40.000 0.00 0.00 0.00 3.24
38 39 6.649557 GGAGTTTTCTTCCGAATTTGAGTCTA 59.350 38.462 0.00 0.00 0.00 2.59
39 40 7.148557 GGAGTTTTCTTCCGAATTTGAGTCTAG 60.149 40.741 0.00 0.00 0.00 2.43
40 41 6.651225 AGTTTTCTTCCGAATTTGAGTCTAGG 59.349 38.462 0.00 0.00 0.00 3.02
41 42 4.124851 TCTTCCGAATTTGAGTCTAGGC 57.875 45.455 0.00 0.00 0.00 3.93
42 43 3.513912 TCTTCCGAATTTGAGTCTAGGCA 59.486 43.478 0.00 0.00 0.00 4.75
43 44 4.162320 TCTTCCGAATTTGAGTCTAGGCAT 59.838 41.667 0.00 0.00 0.00 4.40
44 45 3.797039 TCCGAATTTGAGTCTAGGCATG 58.203 45.455 0.00 0.00 0.00 4.06
45 46 2.874701 CCGAATTTGAGTCTAGGCATGG 59.125 50.000 0.00 0.00 0.00 3.66
46 47 2.874701 CGAATTTGAGTCTAGGCATGGG 59.125 50.000 0.00 0.00 0.00 4.00
47 48 3.682718 CGAATTTGAGTCTAGGCATGGGT 60.683 47.826 0.00 0.00 0.00 4.51
48 49 3.567478 ATTTGAGTCTAGGCATGGGTC 57.433 47.619 0.00 0.00 0.00 4.46
49 50 2.254152 TTGAGTCTAGGCATGGGTCT 57.746 50.000 0.00 0.00 0.00 3.85
50 51 2.254152 TGAGTCTAGGCATGGGTCTT 57.746 50.000 0.00 0.00 0.00 3.01
51 52 1.833630 TGAGTCTAGGCATGGGTCTTG 59.166 52.381 0.00 0.00 0.00 3.02
52 53 1.834263 GAGTCTAGGCATGGGTCTTGT 59.166 52.381 0.00 0.00 0.00 3.16
53 54 1.556911 AGTCTAGGCATGGGTCTTGTG 59.443 52.381 0.00 0.00 0.00 3.33
54 55 1.279271 GTCTAGGCATGGGTCTTGTGT 59.721 52.381 0.00 0.00 0.00 3.72
55 56 1.985159 TCTAGGCATGGGTCTTGTGTT 59.015 47.619 0.00 0.00 0.00 3.32
56 57 2.027192 TCTAGGCATGGGTCTTGTGTTC 60.027 50.000 0.00 0.00 0.00 3.18
57 58 0.251341 AGGCATGGGTCTTGTGTTCC 60.251 55.000 0.00 0.00 0.00 3.62
58 59 1.586154 GGCATGGGTCTTGTGTTCCG 61.586 60.000 0.00 0.00 0.00 4.30
59 60 0.889186 GCATGGGTCTTGTGTTCCGT 60.889 55.000 0.00 0.00 0.00 4.69
60 61 1.609580 GCATGGGTCTTGTGTTCCGTA 60.610 52.381 0.00 0.00 0.00 4.02
61 62 2.773487 CATGGGTCTTGTGTTCCGTAA 58.227 47.619 0.00 0.00 0.00 3.18
62 63 3.142951 CATGGGTCTTGTGTTCCGTAAA 58.857 45.455 0.00 0.00 0.00 2.01
63 64 3.278668 TGGGTCTTGTGTTCCGTAAAA 57.721 42.857 0.00 0.00 0.00 1.52
64 65 3.207778 TGGGTCTTGTGTTCCGTAAAAG 58.792 45.455 0.00 0.00 0.00 2.27
65 66 2.031420 GGGTCTTGTGTTCCGTAAAAGC 60.031 50.000 0.00 0.00 0.00 3.51
66 67 2.876550 GGTCTTGTGTTCCGTAAAAGCT 59.123 45.455 0.00 0.00 0.00 3.74
67 68 4.060205 GGTCTTGTGTTCCGTAAAAGCTA 58.940 43.478 0.00 0.00 0.00 3.32
68 69 4.084171 GGTCTTGTGTTCCGTAAAAGCTAC 60.084 45.833 0.00 0.00 0.00 3.58
69 70 4.508861 GTCTTGTGTTCCGTAAAAGCTACA 59.491 41.667 0.00 0.00 0.00 2.74
70 71 5.178809 GTCTTGTGTTCCGTAAAAGCTACAT 59.821 40.000 0.00 0.00 0.00 2.29
71 72 5.407387 TCTTGTGTTCCGTAAAAGCTACATC 59.593 40.000 0.00 0.00 0.00 3.06
72 73 4.890088 TGTGTTCCGTAAAAGCTACATCT 58.110 39.130 0.00 0.00 0.00 2.90
73 74 4.927425 TGTGTTCCGTAAAAGCTACATCTC 59.073 41.667 0.00 0.00 0.00 2.75
74 75 4.927425 GTGTTCCGTAAAAGCTACATCTCA 59.073 41.667 0.00 0.00 0.00 3.27
75 76 5.407387 GTGTTCCGTAAAAGCTACATCTCAA 59.593 40.000 0.00 0.00 0.00 3.02
76 77 5.407387 TGTTCCGTAAAAGCTACATCTCAAC 59.593 40.000 0.00 0.00 0.00 3.18
77 78 5.401531 TCCGTAAAAGCTACATCTCAACT 57.598 39.130 0.00 0.00 0.00 3.16
78 79 5.168569 TCCGTAAAAGCTACATCTCAACTG 58.831 41.667 0.00 0.00 0.00 3.16
79 80 5.047590 TCCGTAAAAGCTACATCTCAACTGA 60.048 40.000 0.00 0.00 0.00 3.41
80 81 5.289675 CCGTAAAAGCTACATCTCAACTGAG 59.710 44.000 0.00 0.00 43.36 3.35
81 82 5.289675 CGTAAAAGCTACATCTCAACTGAGG 59.710 44.000 6.87 0.00 42.30 3.86
82 83 5.489792 AAAAGCTACATCTCAACTGAGGA 57.510 39.130 6.87 0.00 42.30 3.71
83 84 5.690464 AAAGCTACATCTCAACTGAGGAT 57.310 39.130 6.87 0.00 42.30 3.24
84 85 4.669206 AGCTACATCTCAACTGAGGATG 57.331 45.455 6.87 10.80 42.30 3.51
85 86 4.029520 AGCTACATCTCAACTGAGGATGT 58.970 43.478 19.45 19.45 42.30 3.06
86 87 4.469227 AGCTACATCTCAACTGAGGATGTT 59.531 41.667 20.14 8.40 42.30 2.71
87 88 5.046014 AGCTACATCTCAACTGAGGATGTTT 60.046 40.000 20.14 10.63 42.30 2.83
88 89 5.645497 GCTACATCTCAACTGAGGATGTTTT 59.355 40.000 20.14 7.46 42.30 2.43
89 90 6.150140 GCTACATCTCAACTGAGGATGTTTTT 59.850 38.462 20.14 7.23 42.30 1.94
90 91 6.323203 ACATCTCAACTGAGGATGTTTTTG 57.677 37.500 6.87 0.00 42.30 2.44
91 92 5.242393 ACATCTCAACTGAGGATGTTTTTGG 59.758 40.000 6.87 0.00 42.30 3.28
92 93 3.569701 TCTCAACTGAGGATGTTTTTGGC 59.430 43.478 6.87 0.00 42.30 4.52
93 94 2.627699 TCAACTGAGGATGTTTTTGGCC 59.372 45.455 0.00 0.00 0.00 5.36
94 95 2.364970 CAACTGAGGATGTTTTTGGCCA 59.635 45.455 0.00 0.00 0.00 5.36
95 96 2.893424 ACTGAGGATGTTTTTGGCCAT 58.107 42.857 6.09 0.00 0.00 4.40
96 97 3.242011 ACTGAGGATGTTTTTGGCCATT 58.758 40.909 6.09 0.00 0.00 3.16
97 98 3.007182 ACTGAGGATGTTTTTGGCCATTG 59.993 43.478 6.09 0.00 0.00 2.82
98 99 3.237746 TGAGGATGTTTTTGGCCATTGA 58.762 40.909 6.09 0.00 0.00 2.57
99 100 3.645212 TGAGGATGTTTTTGGCCATTGAA 59.355 39.130 6.09 0.00 0.00 2.69
100 101 4.102210 TGAGGATGTTTTTGGCCATTGAAA 59.898 37.500 6.09 0.42 0.00 2.69
101 102 4.388485 AGGATGTTTTTGGCCATTGAAAC 58.612 39.130 22.92 22.92 33.72 2.78
102 103 4.133078 GGATGTTTTTGGCCATTGAAACA 58.867 39.130 29.20 29.20 43.56 2.83
103 104 4.578105 GGATGTTTTTGGCCATTGAAACAA 59.422 37.500 30.03 20.23 42.93 2.83
104 105 4.954092 TGTTTTTGGCCATTGAAACAAC 57.046 36.364 26.97 14.99 38.58 3.32
105 106 3.691609 TGTTTTTGGCCATTGAAACAACC 59.308 39.130 26.97 11.46 38.58 3.77
106 107 2.629336 TTTGGCCATTGAAACAACCC 57.371 45.000 6.09 0.00 0.00 4.11
107 108 1.799933 TTGGCCATTGAAACAACCCT 58.200 45.000 6.09 0.00 0.00 4.34
108 109 1.047002 TGGCCATTGAAACAACCCTG 58.953 50.000 0.00 0.00 0.00 4.45
109 110 0.321346 GGCCATTGAAACAACCCTGG 59.679 55.000 0.00 0.00 0.00 4.45
110 111 0.321346 GCCATTGAAACAACCCTGGG 59.679 55.000 12.28 12.28 0.00 4.45
111 112 0.975887 CCATTGAAACAACCCTGGGG 59.024 55.000 18.88 7.87 42.03 4.96
112 113 0.321346 CATTGAAACAACCCTGGGGC 59.679 55.000 18.88 0.00 39.32 5.80
113 114 0.105246 ATTGAAACAACCCTGGGGCA 60.105 50.000 18.88 2.27 39.32 5.36
114 115 0.325671 TTGAAACAACCCTGGGGCAA 60.326 50.000 18.88 8.28 39.32 4.52
115 116 0.325671 TGAAACAACCCTGGGGCAAA 60.326 50.000 18.88 0.00 39.32 3.68
116 117 1.055849 GAAACAACCCTGGGGCAAAT 58.944 50.000 18.88 0.00 39.32 2.32
117 118 1.001974 GAAACAACCCTGGGGCAAATC 59.998 52.381 18.88 6.03 39.32 2.17
118 119 0.105246 AACAACCCTGGGGCAAATCA 60.105 50.000 18.88 0.00 39.32 2.57
119 120 0.116940 ACAACCCTGGGGCAAATCAT 59.883 50.000 18.88 0.00 39.32 2.45
120 121 0.826062 CAACCCTGGGGCAAATCATC 59.174 55.000 18.88 0.00 39.32 2.92
121 122 0.325577 AACCCTGGGGCAAATCATCC 60.326 55.000 18.88 0.00 39.32 3.51
122 123 1.310715 CCCTGGGGCAAATCATCCA 59.689 57.895 4.27 0.00 0.00 3.41
123 124 0.325484 CCCTGGGGCAAATCATCCAA 60.325 55.000 4.27 0.00 0.00 3.53
124 125 1.693404 CCCTGGGGCAAATCATCCAAT 60.693 52.381 4.27 0.00 0.00 3.16
125 126 1.690352 CCTGGGGCAAATCATCCAATC 59.310 52.381 0.00 0.00 0.00 2.67
126 127 1.690352 CTGGGGCAAATCATCCAATCC 59.310 52.381 0.00 0.00 0.00 3.01
127 128 1.008084 TGGGGCAAATCATCCAATCCA 59.992 47.619 0.00 0.00 0.00 3.41
128 129 2.332117 GGGGCAAATCATCCAATCCAT 58.668 47.619 0.00 0.00 0.00 3.41
129 130 2.707257 GGGGCAAATCATCCAATCCATT 59.293 45.455 0.00 0.00 0.00 3.16
130 131 3.495453 GGGGCAAATCATCCAATCCATTG 60.495 47.826 0.00 0.00 37.52 2.82
131 132 3.135167 GGGCAAATCATCCAATCCATTGT 59.865 43.478 0.00 0.00 36.06 2.71
132 133 4.344679 GGGCAAATCATCCAATCCATTGTA 59.655 41.667 0.00 0.00 36.06 2.41
133 134 5.163322 GGGCAAATCATCCAATCCATTGTAA 60.163 40.000 0.00 0.00 36.06 2.41
134 135 6.347696 GGCAAATCATCCAATCCATTGTAAA 58.652 36.000 0.00 0.00 36.06 2.01
135 136 6.480981 GGCAAATCATCCAATCCATTGTAAAG 59.519 38.462 0.00 0.00 36.06 1.85
136 137 7.043565 GCAAATCATCCAATCCATTGTAAAGT 58.956 34.615 0.00 0.00 36.06 2.66
137 138 7.010738 GCAAATCATCCAATCCATTGTAAAGTG 59.989 37.037 0.00 0.00 36.06 3.16
138 139 6.720112 ATCATCCAATCCATTGTAAAGTGG 57.280 37.500 0.00 0.00 36.06 4.00
139 140 4.955450 TCATCCAATCCATTGTAAAGTGGG 59.045 41.667 0.00 0.00 36.06 4.61
140 141 3.707316 TCCAATCCATTGTAAAGTGGGG 58.293 45.455 0.00 0.00 36.06 4.96
141 142 2.168313 CCAATCCATTGTAAAGTGGGGC 59.832 50.000 0.00 0.00 36.06 5.80
142 143 2.830923 CAATCCATTGTAAAGTGGGGCA 59.169 45.455 0.00 0.00 36.15 5.36
143 144 2.685106 TCCATTGTAAAGTGGGGCAA 57.315 45.000 0.00 0.00 36.15 4.52
144 145 2.964209 TCCATTGTAAAGTGGGGCAAA 58.036 42.857 0.00 0.00 36.15 3.68
145 146 3.515562 TCCATTGTAAAGTGGGGCAAAT 58.484 40.909 0.00 0.00 36.15 2.32
146 147 3.513515 TCCATTGTAAAGTGGGGCAAATC 59.486 43.478 0.00 0.00 36.15 2.17
147 148 3.260380 CCATTGTAAAGTGGGGCAAATCA 59.740 43.478 0.00 0.00 0.00 2.57
148 149 4.080975 CCATTGTAAAGTGGGGCAAATCAT 60.081 41.667 0.00 0.00 0.00 2.45
149 150 5.490159 CATTGTAAAGTGGGGCAAATCATT 58.510 37.500 0.00 0.00 0.00 2.57
150 151 4.799564 TGTAAAGTGGGGCAAATCATTC 57.200 40.909 0.00 0.00 0.00 2.67
151 152 4.155709 TGTAAAGTGGGGCAAATCATTCA 58.844 39.130 0.00 0.00 0.00 2.57
152 153 4.590647 TGTAAAGTGGGGCAAATCATTCAA 59.409 37.500 0.00 0.00 0.00 2.69
153 154 4.914177 AAAGTGGGGCAAATCATTCAAT 57.086 36.364 0.00 0.00 0.00 2.57
154 155 4.476628 AAGTGGGGCAAATCATTCAATC 57.523 40.909 0.00 0.00 0.00 2.67
155 156 2.767960 AGTGGGGCAAATCATTCAATCC 59.232 45.455 0.00 0.00 0.00 3.01
156 157 2.117865 TGGGGCAAATCATTCAATCCC 58.882 47.619 0.00 0.00 0.00 3.85
157 158 1.417517 GGGGCAAATCATTCAATCCCC 59.582 52.381 0.00 0.00 44.32 4.81
158 159 1.417517 GGGCAAATCATTCAATCCCCC 59.582 52.381 0.00 0.00 0.00 5.40
195 196 8.502387 CCATCTTCTATAATTTGTCAAGCTAGC 58.498 37.037 6.62 6.62 0.00 3.42
197 198 5.907197 TCTATAATTTGTCAAGCTAGCGC 57.093 39.130 9.55 0.00 0.00 5.92
203 204 0.318441 TGTCAAGCTAGCGCACTCTT 59.682 50.000 11.47 6.18 39.10 2.85
205 206 0.318441 TCAAGCTAGCGCACTCTTGT 59.682 50.000 24.43 2.46 37.68 3.16
273 274 2.448926 ACCAAATGGCGCCTAAAAAC 57.551 45.000 29.70 0.00 39.32 2.43
286 287 3.324993 CCTAAAAACGCCAACATGCATT 58.675 40.909 0.00 0.00 0.00 3.56
409 426 0.815213 TTGTGCTGAGTGAGTGGTGC 60.815 55.000 0.00 0.00 0.00 5.01
435 452 9.362539 CAGCATTTATTTGAGCTAATGAAGTTT 57.637 29.630 8.49 0.00 35.19 2.66
452 469 7.377766 TGAAGTTTACATGATAAACTGGCTC 57.622 36.000 22.72 18.75 44.27 4.70
475 492 4.920340 CGCTAGTCATAGGAACATGCTAAG 59.080 45.833 0.00 0.00 0.00 2.18
517 534 8.701895 ACCATCTCCGTCAGTTTAATAATAGAA 58.298 33.333 0.00 0.00 0.00 2.10
607 646 1.073722 CCCCAGAGCAAAGCAGTCA 59.926 57.895 0.00 0.00 0.00 3.41
609 648 0.535780 CCCAGAGCAAAGCAGTCACA 60.536 55.000 0.00 0.00 0.00 3.58
650 700 3.245122 CCCTTTGCTGGTAAGGAAACCTA 60.245 47.826 3.28 0.00 44.01 3.08
683 733 4.022464 TCGTTGTTCGTTCATTTTGCTT 57.978 36.364 0.00 0.00 40.80 3.91
692 745 7.389330 TGTTCGTTCATTTTGCTTCCTTCTATA 59.611 33.333 0.00 0.00 0.00 1.31
695 748 7.552687 TCGTTCATTTTGCTTCCTTCTATATGT 59.447 33.333 0.00 0.00 0.00 2.29
743 799 2.959030 TCGAAGATCAATCCCAGTCGAT 59.041 45.455 0.00 0.00 31.66 3.59
804 860 3.191162 CCATCTGATCGGTTTTTGCTCAA 59.809 43.478 0.42 0.00 0.00 3.02
819 876 7.972623 TTTTGCTCAAATTTTGCTTCATTTG 57.027 28.000 12.38 8.09 40.39 2.32
820 877 6.680874 TTGCTCAAATTTTGCTTCATTTGT 57.319 29.167 12.38 0.00 40.09 2.83
1081 1211 8.230486 ACATATCAGAATCAAGAACGTTGTTTC 58.770 33.333 5.00 2.59 0.00 2.78
1249 1381 2.124109 TCCAGTGCCCGTTTTGCA 60.124 55.556 0.00 0.00 36.12 4.08
1707 1851 6.785191 TGAGAAATATGAAAATGAGGAACGC 58.215 36.000 0.00 0.00 0.00 4.84
2564 2708 2.348243 CAAACCTCCCGCGGGTTA 59.652 61.111 41.57 24.58 45.15 2.85
2620 2764 0.776810 TGGGACACCATGTTGGATGT 59.223 50.000 0.00 1.44 43.37 3.06
2641 2785 2.890311 TCAAAAATGGTCCAGATGCGTT 59.110 40.909 0.00 0.00 0.00 4.84
2645 2789 0.677731 ATGGTCCAGATGCGTTGGTG 60.678 55.000 0.00 0.00 37.02 4.17
3615 3769 3.321497 TGTGTTCAACTTGTTTGGTTGC 58.679 40.909 0.00 0.00 42.40 4.17
3653 3808 7.630470 AGTATTTCATTCATCGATTCGAGAC 57.370 36.000 14.81 0.00 39.91 3.36
3683 3838 1.143970 TTCCCGAACCCCAAATCCCT 61.144 55.000 0.00 0.00 0.00 4.20
3728 3883 1.176619 TTTCAGTCTCGACGCCCTCA 61.177 55.000 0.00 0.00 36.20 3.86
3776 3931 1.142262 GGTGTGGTTGTAGGAGTGGTT 59.858 52.381 0.00 0.00 0.00 3.67
3777 3932 2.218603 GTGTGGTTGTAGGAGTGGTTG 58.781 52.381 0.00 0.00 0.00 3.77
3778 3933 1.841277 TGTGGTTGTAGGAGTGGTTGT 59.159 47.619 0.00 0.00 0.00 3.32
3779 3934 2.158871 TGTGGTTGTAGGAGTGGTTGTC 60.159 50.000 0.00 0.00 0.00 3.18
3780 3935 2.120312 TGGTTGTAGGAGTGGTTGTCA 58.880 47.619 0.00 0.00 0.00 3.58
3781 3936 2.104111 TGGTTGTAGGAGTGGTTGTCAG 59.896 50.000 0.00 0.00 0.00 3.51
3782 3937 2.367567 GGTTGTAGGAGTGGTTGTCAGA 59.632 50.000 0.00 0.00 0.00 3.27
3791 3946 5.190528 AGGAGTGGTTGTCAGATACATCAAT 59.809 40.000 0.00 0.00 38.10 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.887151 AAACTCCCCAGTTGAGATGG 57.113 50.000 0.00 0.00 42.45 3.51
1 2 4.026356 AGAAAACTCCCCAGTTGAGATG 57.974 45.455 0.00 0.00 42.45 2.90
2 3 4.507512 GGAAGAAAACTCCCCAGTTGAGAT 60.508 45.833 0.00 0.00 42.45 2.75
3 4 3.181443 GGAAGAAAACTCCCCAGTTGAGA 60.181 47.826 0.00 0.00 42.45 3.27
4 5 3.149981 GGAAGAAAACTCCCCAGTTGAG 58.850 50.000 0.00 0.00 42.45 3.02
5 6 2.486548 CGGAAGAAAACTCCCCAGTTGA 60.487 50.000 0.00 0.00 42.45 3.18
6 7 1.880027 CGGAAGAAAACTCCCCAGTTG 59.120 52.381 0.00 0.00 42.45 3.16
7 8 1.772453 TCGGAAGAAAACTCCCCAGTT 59.228 47.619 0.00 0.00 39.01 3.16
8 9 1.430992 TCGGAAGAAAACTCCCCAGT 58.569 50.000 0.00 0.00 37.03 4.00
20 21 3.513912 TGCCTAGACTCAAATTCGGAAGA 59.486 43.478 0.00 0.00 39.20 2.87
21 22 3.861840 TGCCTAGACTCAAATTCGGAAG 58.138 45.455 0.00 0.00 0.00 3.46
22 23 3.973206 TGCCTAGACTCAAATTCGGAA 57.027 42.857 0.00 0.00 0.00 4.30
23 24 3.432186 CCATGCCTAGACTCAAATTCGGA 60.432 47.826 0.00 0.00 0.00 4.55
24 25 2.874701 CCATGCCTAGACTCAAATTCGG 59.125 50.000 0.00 0.00 0.00 4.30
25 26 2.874701 CCCATGCCTAGACTCAAATTCG 59.125 50.000 0.00 0.00 0.00 3.34
26 27 3.879892 GACCCATGCCTAGACTCAAATTC 59.120 47.826 0.00 0.00 0.00 2.17
27 28 3.525199 AGACCCATGCCTAGACTCAAATT 59.475 43.478 0.00 0.00 0.00 1.82
28 29 3.118531 AGACCCATGCCTAGACTCAAAT 58.881 45.455 0.00 0.00 0.00 2.32
29 30 2.551270 AGACCCATGCCTAGACTCAAA 58.449 47.619 0.00 0.00 0.00 2.69
30 31 2.237143 CAAGACCCATGCCTAGACTCAA 59.763 50.000 0.00 0.00 0.00 3.02
31 32 1.833630 CAAGACCCATGCCTAGACTCA 59.166 52.381 0.00 0.00 0.00 3.41
32 33 1.834263 ACAAGACCCATGCCTAGACTC 59.166 52.381 0.00 0.00 0.00 3.36
33 34 1.556911 CACAAGACCCATGCCTAGACT 59.443 52.381 0.00 0.00 0.00 3.24
34 35 1.279271 ACACAAGACCCATGCCTAGAC 59.721 52.381 0.00 0.00 0.00 2.59
35 36 1.656587 ACACAAGACCCATGCCTAGA 58.343 50.000 0.00 0.00 0.00 2.43
36 37 2.359900 GAACACAAGACCCATGCCTAG 58.640 52.381 0.00 0.00 0.00 3.02
37 38 1.004277 GGAACACAAGACCCATGCCTA 59.996 52.381 0.00 0.00 0.00 3.93
38 39 0.251341 GGAACACAAGACCCATGCCT 60.251 55.000 0.00 0.00 0.00 4.75
39 40 1.586154 CGGAACACAAGACCCATGCC 61.586 60.000 0.00 0.00 0.00 4.40
40 41 0.889186 ACGGAACACAAGACCCATGC 60.889 55.000 0.00 0.00 0.00 4.06
41 42 2.465860 TACGGAACACAAGACCCATG 57.534 50.000 0.00 0.00 0.00 3.66
42 43 3.495434 TTTACGGAACACAAGACCCAT 57.505 42.857 0.00 0.00 0.00 4.00
43 44 3.207778 CTTTTACGGAACACAAGACCCA 58.792 45.455 0.00 0.00 0.00 4.51
44 45 2.031420 GCTTTTACGGAACACAAGACCC 60.031 50.000 0.00 0.00 0.00 4.46
45 46 2.876550 AGCTTTTACGGAACACAAGACC 59.123 45.455 0.00 0.00 0.00 3.85
46 47 4.508861 TGTAGCTTTTACGGAACACAAGAC 59.491 41.667 0.00 0.00 0.00 3.01
47 48 4.695396 TGTAGCTTTTACGGAACACAAGA 58.305 39.130 0.00 0.00 0.00 3.02
48 49 5.408604 AGATGTAGCTTTTACGGAACACAAG 59.591 40.000 0.00 0.00 0.00 3.16
49 50 5.302360 AGATGTAGCTTTTACGGAACACAA 58.698 37.500 0.00 0.00 0.00 3.33
50 51 4.890088 AGATGTAGCTTTTACGGAACACA 58.110 39.130 0.00 0.00 0.00 3.72
51 52 4.927425 TGAGATGTAGCTTTTACGGAACAC 59.073 41.667 0.00 0.00 0.00 3.32
52 53 5.142061 TGAGATGTAGCTTTTACGGAACA 57.858 39.130 0.00 0.00 0.00 3.18
53 54 5.638234 AGTTGAGATGTAGCTTTTACGGAAC 59.362 40.000 0.00 0.00 0.00 3.62
54 55 5.637810 CAGTTGAGATGTAGCTTTTACGGAA 59.362 40.000 0.00 0.00 0.00 4.30
55 56 5.047590 TCAGTTGAGATGTAGCTTTTACGGA 60.048 40.000 0.00 0.00 0.00 4.69
56 57 5.168569 TCAGTTGAGATGTAGCTTTTACGG 58.831 41.667 0.00 0.00 0.00 4.02
57 58 5.289675 CCTCAGTTGAGATGTAGCTTTTACG 59.710 44.000 10.64 0.00 44.74 3.18
58 59 6.398918 TCCTCAGTTGAGATGTAGCTTTTAC 58.601 40.000 10.64 0.00 44.74 2.01
59 60 6.605471 TCCTCAGTTGAGATGTAGCTTTTA 57.395 37.500 10.64 0.00 44.74 1.52
60 61 5.489792 TCCTCAGTTGAGATGTAGCTTTT 57.510 39.130 10.64 0.00 44.74 2.27
61 62 5.046014 ACATCCTCAGTTGAGATGTAGCTTT 60.046 40.000 17.67 2.45 44.74 3.51
62 63 4.469227 ACATCCTCAGTTGAGATGTAGCTT 59.531 41.667 17.67 2.91 44.74 3.74
63 64 4.029520 ACATCCTCAGTTGAGATGTAGCT 58.970 43.478 17.67 0.00 44.74 3.32
64 65 4.399004 ACATCCTCAGTTGAGATGTAGC 57.601 45.455 17.67 0.00 44.74 3.58
65 66 7.361542 CCAAAAACATCCTCAGTTGAGATGTAG 60.362 40.741 18.64 12.73 44.74 2.74
66 67 6.430925 CCAAAAACATCCTCAGTTGAGATGTA 59.569 38.462 18.64 3.32 44.74 2.29
67 68 5.242393 CCAAAAACATCCTCAGTTGAGATGT 59.758 40.000 10.64 13.57 44.74 3.06
68 69 5.706916 CCAAAAACATCCTCAGTTGAGATG 58.293 41.667 10.64 13.05 44.74 2.90
69 70 4.219288 GCCAAAAACATCCTCAGTTGAGAT 59.781 41.667 10.64 0.46 44.74 2.75
70 71 3.569701 GCCAAAAACATCCTCAGTTGAGA 59.430 43.478 10.64 0.00 44.74 3.27
71 72 3.305608 GGCCAAAAACATCCTCAGTTGAG 60.306 47.826 0.00 2.09 41.71 3.02
72 73 2.627699 GGCCAAAAACATCCTCAGTTGA 59.372 45.455 0.00 0.00 0.00 3.18
73 74 2.364970 TGGCCAAAAACATCCTCAGTTG 59.635 45.455 0.61 0.00 0.00 3.16
74 75 2.676748 TGGCCAAAAACATCCTCAGTT 58.323 42.857 0.61 0.00 0.00 3.16
75 76 2.380064 TGGCCAAAAACATCCTCAGT 57.620 45.000 0.61 0.00 0.00 3.41
76 77 3.258872 TCAATGGCCAAAAACATCCTCAG 59.741 43.478 10.96 0.00 0.00 3.35
77 78 3.237746 TCAATGGCCAAAAACATCCTCA 58.762 40.909 10.96 0.00 0.00 3.86
78 79 3.959535 TCAATGGCCAAAAACATCCTC 57.040 42.857 10.96 0.00 0.00 3.71
79 80 4.141528 TGTTTCAATGGCCAAAAACATCCT 60.142 37.500 27.39 2.56 36.86 3.24
80 81 4.133078 TGTTTCAATGGCCAAAAACATCC 58.867 39.130 27.39 12.20 36.86 3.51
81 82 5.505489 GGTTGTTTCAATGGCCAAAAACATC 60.505 40.000 29.64 27.68 40.25 3.06
82 83 4.337836 GGTTGTTTCAATGGCCAAAAACAT 59.662 37.500 29.64 6.84 40.25 2.71
83 84 3.691609 GGTTGTTTCAATGGCCAAAAACA 59.308 39.130 27.39 27.39 39.21 2.83
84 85 3.066064 GGGTTGTTTCAATGGCCAAAAAC 59.934 43.478 24.22 24.22 33.32 2.43
85 86 3.054065 AGGGTTGTTTCAATGGCCAAAAA 60.054 39.130 10.96 8.46 0.00 1.94
86 87 2.507471 AGGGTTGTTTCAATGGCCAAAA 59.493 40.909 10.96 2.49 0.00 2.44
87 88 2.122768 AGGGTTGTTTCAATGGCCAAA 58.877 42.857 10.96 0.00 0.00 3.28
88 89 1.415659 CAGGGTTGTTTCAATGGCCAA 59.584 47.619 10.96 0.00 0.00 4.52
89 90 1.047002 CAGGGTTGTTTCAATGGCCA 58.953 50.000 8.56 8.56 0.00 5.36
90 91 0.321346 CCAGGGTTGTTTCAATGGCC 59.679 55.000 0.00 0.00 0.00 5.36
91 92 0.321346 CCCAGGGTTGTTTCAATGGC 59.679 55.000 0.00 0.00 0.00 4.40
92 93 0.975887 CCCCAGGGTTGTTTCAATGG 59.024 55.000 4.22 0.00 0.00 3.16
93 94 0.321346 GCCCCAGGGTTGTTTCAATG 59.679 55.000 4.22 0.00 37.65 2.82
94 95 0.105246 TGCCCCAGGGTTGTTTCAAT 60.105 50.000 4.22 0.00 37.65 2.57
95 96 0.325671 TTGCCCCAGGGTTGTTTCAA 60.326 50.000 4.22 0.00 37.65 2.69
96 97 0.325671 TTTGCCCCAGGGTTGTTTCA 60.326 50.000 4.22 0.00 37.65 2.69
97 98 1.001974 GATTTGCCCCAGGGTTGTTTC 59.998 52.381 4.22 0.00 37.65 2.78
98 99 1.055849 GATTTGCCCCAGGGTTGTTT 58.944 50.000 4.22 0.00 37.65 2.83
99 100 0.105246 TGATTTGCCCCAGGGTTGTT 60.105 50.000 4.22 0.00 37.65 2.83
100 101 0.116940 ATGATTTGCCCCAGGGTTGT 59.883 50.000 4.22 0.00 37.65 3.32
101 102 0.826062 GATGATTTGCCCCAGGGTTG 59.174 55.000 4.22 0.00 37.65 3.77
102 103 0.325577 GGATGATTTGCCCCAGGGTT 60.326 55.000 4.22 0.00 37.65 4.11
103 104 1.311059 GGATGATTTGCCCCAGGGT 59.689 57.895 4.22 0.00 37.65 4.34
104 105 0.325484 TTGGATGATTTGCCCCAGGG 60.325 55.000 0.00 0.00 38.57 4.45
105 106 1.690352 GATTGGATGATTTGCCCCAGG 59.310 52.381 0.00 0.00 0.00 4.45
106 107 1.690352 GGATTGGATGATTTGCCCCAG 59.310 52.381 0.00 0.00 0.00 4.45
107 108 1.008084 TGGATTGGATGATTTGCCCCA 59.992 47.619 0.00 0.00 0.00 4.96
108 109 1.792115 TGGATTGGATGATTTGCCCC 58.208 50.000 0.00 0.00 0.00 5.80
109 110 3.135167 ACAATGGATTGGATGATTTGCCC 59.865 43.478 4.45 0.00 41.96 5.36
110 111 4.411256 ACAATGGATTGGATGATTTGCC 57.589 40.909 4.45 0.00 41.96 4.52
111 112 7.010738 CACTTTACAATGGATTGGATGATTTGC 59.989 37.037 4.45 0.00 41.96 3.68
112 113 7.493320 CCACTTTACAATGGATTGGATGATTTG 59.507 37.037 4.45 0.00 41.96 2.32
113 114 7.364939 CCCACTTTACAATGGATTGGATGATTT 60.365 37.037 4.45 0.00 41.96 2.17
114 115 6.098695 CCCACTTTACAATGGATTGGATGATT 59.901 38.462 4.45 0.00 41.96 2.57
115 116 5.599656 CCCACTTTACAATGGATTGGATGAT 59.400 40.000 4.45 0.00 41.96 2.45
116 117 4.955450 CCCACTTTACAATGGATTGGATGA 59.045 41.667 4.45 0.00 41.96 2.92
117 118 4.099881 CCCCACTTTACAATGGATTGGATG 59.900 45.833 4.45 0.00 41.96 3.51
118 119 4.289245 CCCCACTTTACAATGGATTGGAT 58.711 43.478 4.45 0.00 41.96 3.41
119 120 3.707316 CCCCACTTTACAATGGATTGGA 58.293 45.455 4.45 0.00 41.96 3.53
120 121 2.168313 GCCCCACTTTACAATGGATTGG 59.832 50.000 4.45 0.00 41.96 3.16
121 122 2.830923 TGCCCCACTTTACAATGGATTG 59.169 45.455 0.00 0.00 43.26 2.67
122 123 3.182887 TGCCCCACTTTACAATGGATT 57.817 42.857 0.00 0.00 38.34 3.01
123 124 2.917713 TGCCCCACTTTACAATGGAT 57.082 45.000 0.00 0.00 38.34 3.41
124 125 2.685106 TTGCCCCACTTTACAATGGA 57.315 45.000 0.00 0.00 38.34 3.41
125 126 3.260380 TGATTTGCCCCACTTTACAATGG 59.740 43.478 0.00 0.00 35.59 3.16
126 127 4.533919 TGATTTGCCCCACTTTACAATG 57.466 40.909 0.00 0.00 0.00 2.82
127 128 5.248020 TGAATGATTTGCCCCACTTTACAAT 59.752 36.000 0.00 0.00 0.00 2.71
128 129 4.590647 TGAATGATTTGCCCCACTTTACAA 59.409 37.500 0.00 0.00 0.00 2.41
129 130 4.155709 TGAATGATTTGCCCCACTTTACA 58.844 39.130 0.00 0.00 0.00 2.41
130 131 4.799564 TGAATGATTTGCCCCACTTTAC 57.200 40.909 0.00 0.00 0.00 2.01
131 132 5.104982 GGATTGAATGATTTGCCCCACTTTA 60.105 40.000 0.00 0.00 0.00 1.85
132 133 4.323715 GGATTGAATGATTTGCCCCACTTT 60.324 41.667 0.00 0.00 0.00 2.66
133 134 3.198417 GGATTGAATGATTTGCCCCACTT 59.802 43.478 0.00 0.00 0.00 3.16
134 135 2.767960 GGATTGAATGATTTGCCCCACT 59.232 45.455 0.00 0.00 0.00 4.00
135 136 2.158914 GGGATTGAATGATTTGCCCCAC 60.159 50.000 0.00 0.00 32.98 4.61
136 137 2.117865 GGGATTGAATGATTTGCCCCA 58.882 47.619 0.00 0.00 32.98 4.96
137 138 1.417517 GGGGATTGAATGATTTGCCCC 59.582 52.381 0.00 0.00 46.15 5.80
138 139 1.417517 GGGGGATTGAATGATTTGCCC 59.582 52.381 0.00 0.00 38.91 5.36
139 140 2.916702 GGGGGATTGAATGATTTGCC 57.083 50.000 0.00 0.00 0.00 4.52
273 274 0.371989 CATTGCAATGCATGTTGGCG 59.628 50.000 25.50 0.00 38.76 5.69
286 287 5.351948 TGTAGATACTACAAGGCATTGCA 57.648 39.130 11.69 0.00 40.27 4.08
409 426 8.922058 AACTTCATTAGCTCAAATAAATGCTG 57.078 30.769 0.00 0.00 37.02 4.41
435 452 3.819564 AGCGAGCCAGTTTATCATGTA 57.180 42.857 0.00 0.00 0.00 2.29
439 456 2.758423 TGACTAGCGAGCCAGTTTATCA 59.242 45.455 0.00 0.00 0.00 2.15
452 469 3.377346 AGCATGTTCCTATGACTAGCG 57.623 47.619 0.00 0.00 0.00 4.26
517 534 1.076777 CCGGCCAGGGATTGACATT 60.077 57.895 2.24 0.00 35.97 2.71
626 673 2.557056 GTTTCCTTACCAGCAAAGGGAC 59.443 50.000 2.23 0.00 43.20 4.46
650 700 2.416547 CGAACAACGATCCAAGCAAGAT 59.583 45.455 0.00 0.00 45.77 2.40
683 733 9.513906 TTCAATTGTTCACAACATATAGAAGGA 57.486 29.630 5.13 0.00 41.79 3.36
718 771 5.068591 TCGACTGGGATTGATCTTCGAATAA 59.931 40.000 0.00 0.00 31.51 1.40
719 772 4.583073 TCGACTGGGATTGATCTTCGAATA 59.417 41.667 0.00 0.00 31.51 1.75
720 773 3.384789 TCGACTGGGATTGATCTTCGAAT 59.615 43.478 0.00 0.00 31.51 3.34
722 775 2.375146 TCGACTGGGATTGATCTTCGA 58.625 47.619 0.00 0.00 0.00 3.71
723 776 2.871182 TCGACTGGGATTGATCTTCG 57.129 50.000 0.00 0.00 0.00 3.79
724 777 2.805099 GCATCGACTGGGATTGATCTTC 59.195 50.000 0.00 0.00 0.00 2.87
726 779 1.071385 GGCATCGACTGGGATTGATCT 59.929 52.381 0.00 0.00 0.00 2.75
727 780 1.202687 TGGCATCGACTGGGATTGATC 60.203 52.381 0.00 0.00 0.00 2.92
743 799 2.279743 GGCAAGGATGGGATGGCA 59.720 61.111 0.00 0.00 39.25 4.92
1249 1381 6.073003 GCTAGTTTGTACACTGCTTCAGAATT 60.073 38.462 0.00 0.00 35.18 2.17
1707 1851 1.610038 TGTGCTTTGTGATCAGCAAGG 59.390 47.619 8.76 10.99 39.10 3.61
2276 2420 5.248870 AGGTTGATTTTAGCTATTTGGCG 57.751 39.130 0.00 0.00 37.29 5.69
2391 2535 2.044946 GCTGTTTGGCGGGAGGAT 60.045 61.111 0.00 0.00 0.00 3.24
2559 2703 0.521735 CGCAAACCAGAAGCTAACCC 59.478 55.000 0.00 0.00 0.00 4.11
2564 2708 0.251341 AATCCCGCAAACCAGAAGCT 60.251 50.000 0.00 0.00 0.00 3.74
2620 2764 2.513753 ACGCATCTGGACCATTTTTGA 58.486 42.857 0.00 0.00 0.00 2.69
3615 3769 3.376234 TGAAATACTACGTCCCTCAGTCG 59.624 47.826 0.00 0.00 0.00 4.18
3641 3796 2.605823 GCTTCCATCGTCTCGAATCGAT 60.606 50.000 5.59 15.43 45.63 3.59
3683 3838 2.354503 GGAGAATGACAGCTGAGAGCAA 60.355 50.000 23.35 0.00 45.56 3.91
3728 3883 1.364328 AGACTGTGGGAAGGAGGAGAT 59.636 52.381 0.00 0.00 0.00 2.75
3776 3931 7.724061 TGGTACTAGCTATTGATGTATCTGACA 59.276 37.037 0.00 0.00 43.97 3.58
3777 3932 8.112016 TGGTACTAGCTATTGATGTATCTGAC 57.888 38.462 0.00 0.00 0.00 3.51
3778 3933 8.577296 GTTGGTACTAGCTATTGATGTATCTGA 58.423 37.037 0.00 0.00 0.00 3.27
3779 3934 8.580720 AGTTGGTACTAGCTATTGATGTATCTG 58.419 37.037 0.00 0.00 31.21 2.90
3780 3935 8.580720 CAGTTGGTACTAGCTATTGATGTATCT 58.419 37.037 0.00 0.00 31.96 1.98
3781 3936 7.329717 GCAGTTGGTACTAGCTATTGATGTATC 59.670 40.741 0.00 0.00 31.96 2.24
3782 3937 7.015682 AGCAGTTGGTACTAGCTATTGATGTAT 59.984 37.037 0.00 0.00 37.15 2.29
3791 3946 4.023980 ACATCAGCAGTTGGTACTAGCTA 58.976 43.478 0.00 0.00 36.95 3.32
3864 4019 3.335579 GCTTTACTAGTGACCTTGGGTG 58.664 50.000 5.39 0.00 35.25 4.61


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.